Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 25.01 kDa 
• Atom Count: 1747 
• Modelled Residue Count: 214 
• Deposited Residue Count: 228 
• Unique protein chains: 1

6H8M

Crystal structure of the third SRCR domain of Murine Neurotrypsin.

• PDB DOI: 10.2210/pdb6H8M/pdb

• Classification: HYDROLASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-08-02 Released: 2019-02-20 
• Deposition Author(s): Canciani, A., Forneris, F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.213 
• R-Value Work: 0.190 
• R-Value Observed: 0.191 

Literature

Structural characterization of the third scavenger receptor cysteine-rich domain of murine neurotrypsin.

Canciani, A., Catucci, G., Forneris, F.

(2019) Protein Sci 28: 746-755

• PubMed: 30748049 
• DOI: 10.1002/pro.3587
• Primary Citation of Related Structures:  
  6H8M


• PubMed Abstract: 
  

Neurotrypsin (NT) is a multi-domain serine protease of the nervous system with only one known substrate: the large proteoglycan Agrin. NT has seen to be involved in the maintenance/turnover of neuromuscular junctions and in processes of synaptic plasticity in the central nervous system. Roles which have been tied to its enzymatic activity, localized in the C-terminal serine-protease (SP) domain. However the purpose of NT's remaining 3-4 scavenger receptor cysteine-rich (SRCR) domains is still unclear. We have determined the crystal structure of the third SRCR domain of murine NT (mmNT-SRCR3), immediately preceding the SP domain and performed a comparative structural analysis using homologous SRCR structures. Our data and the elevated degree of structural conservation with homologous domains highlight possible functional roles for NT SRCRs. Computational and experimental analyses suggest the identification of a putative binding region for Ca ²⁺ ions, known to regulate NT enzymatic activity. Furthermore, sequence and structure comparisons allow to single out regions of interest that, in future studies, might be implicated in Agrin recognition/binding or in interactions with as of yet undiscovered NT partners.

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Organizational Affiliation: 

The Armenise-Harvard Laboratory of Structural Biology, Department of Biology and Biotechnology, University of Pavia, Via Ferrata 9/A, 27100 Pavia, Italy.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Neurotrypsin	A, B	114	Mus musculus	Mutation(s): 0  Gene Names: Prss12, Bssp3 EC: 3.4.21
UniProt & NIH Common Fund Data Resources
Find proteins for O08762 (Mus musculus) Explore O08762  Go to UniProtKB:  O08762
IMPC:  MGI:1100881

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.213 
• R-Value Work: 0.190 
• R-Value Observed: 0.191 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.752	α = 90
b = 62.902	β = 90
c = 84.526	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2018-08-02 
• Released Date: 2019-02-20 
Deposition Author(s): Canciani, A., Forneris, F.

Revision History  

• Version 1.0: 2019-02-20
  Type: Initial release
  
• Version 1.1: 2019-03-27
  Changes: Data collection, Database references